Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008299.1 Kokia drynarioides strain JFW-HI SEQ_122964, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000

Length: 10311
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35


Found at i:893 original size:97 final size:97

Alignment explanation


    Indices: 739--919  Score: 215
    Period size: 97  Copynumber: 1.9  Consensus size: 97

        729 TGATATTTAC

                *           *     *          *           *    *             *
        739 CAAATACGTGTAATATTAAGAATTGCAGAAGAATAAATGAAGATGGTGATTTATATTTGAACT-T
          1 CAAACACGTGTAATATCAAGAACTGCAGAAGAACAAATGAAGATGATGATATATATTTGAA-TAC

                                             
        803 TAAAAATCAAATCAATTATACAATCGATCTTCA
         65 TAAAAATCAAATCAATTATACAATCGATCTTCA

                                                              *   *     *    
        836 CAAACACGTGTAATATCAAGAACTGC-GTAAGAACAAATGAAGACT-ATGGTATGTATTTTAATA
          1 CAAACACGTGTAATATCAAGAACTGCAG-AAGAACAAATGAAGA-TGATGATATATATTTGAATA

                          *      
        899 CTAAAAATCAAATCGATTATA
         64 CTAAAAATCAAATCAATTATA

        920 TATAAGATCA


Statistics
Matches: 70,  Mismatches: 11, Indels: 6
        0.80            0.13        0.07

Matches are distributed among these distances:
  96    2  0.03
  97   67  0.96
  98    1  0.01

ACGTcount: A:0.45, C:0.12, G:0.14, T:0.30


Consensus pattern (97 bp):   
CAAACACGTGTAATATCAAGAACTGCAGAAGAACAAATGAAGATGATGATATATATTTGAATACT
AAAAATCAAATCAATTATACAATCGATCTTCA

Found at i:9469 original size:101 final size:96

Alignment explanation


    Indices: 9355--9573  Score: 223
    Period size: 97  Copynumber: 2.2  Consensus size: 96

       9345 CGTATGCATG

                   *              *     *                                   *
       9355 TCTTAATGTTACACGTATTTGTTAAGATTGATCT-TATATATAATCGATTTGATTTTT-AGTATT
          1 TCTTAATATTACACGTATTTGTGAAGATCGAT-TGTATA-AT--T-GATTTGATTTTTAAGT-TC

                   *                   *           * 
       9418 AAA-ATACAT-ACCATAGTCTTCATTTGTTCTTAC-GCAGT
         60 AAATATAAATCACC--A-TCTTCATTTATTCTT-CTGCAAT

                *           *                                                
       9456 TCTTGATATTACACGTGTTTGTGAAGATCGATTGTATAATTGATTTGATTTTTAAAGTTCAAATA
          1 TCTTAATATTACACGTATTTGTGAAGATCGATTGTATAATTGATTTGATTTTT-AAGTTCAAATA

                                            
       9521 TAAATCACCATCTTCATTTATTCTTCTGCAAT
         65 TAAATCACCATCTTCATTTATTCTTCTGCAAT

                                 
       9553 TCTTAATATTACACGTATTTG
          1 TCTTAATATTACACGTATTTG

       9574 GTAAATATCA


Statistics
Matches: 101,  Mismatches: 11, Indels: 16
        0.79            0.09        0.12

Matches are distributed among these distances:
  96    1  0.01
  97   49  0.49
  98    6  0.06
  99    8  0.08
 100    6  0.06
 101   31  0.31

ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45


Consensus pattern (96 bp):   
TCTTAATATTACACGTATTTGTGAAGATCGATTGTATAATTGATTTGATTTTTAAGTTCAAATAT
AAATCACCATCTTCATTTATTCTTCTGCAAT

Done.